BamQC report ----------------------------------- >>>>>>> Input bam file = SRR8751195.sorted.bam outfile = /home/luna/rawdata/yangyxdownload/SRP188831/SRP188831.result/quality.files/genome_results.txt >>>>>>> Reference number of bases = 3,095,693,983 bp number of contigs = 25 >>>>>>> Globals number of windows = 424 number of reads = 4,572,050 number of mapped reads = 4,496,240 (98.34%) number of supplementary alignments = 83,660 (1.83%) number of secondary alignments = 0 number of mapped bases = 445,030,355 bp number of sequenced bases = 444,919,322 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 62,965 duplication rate = 1.24% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 51.7693 >>>>>>> ACTG content number of A's = 131,181,693 bp (29.48%) number of C's = 91,434,179 bp (20.55%) number of T's = 132,039,952 bp (29.68%) number of G's = 90,260,990 bp (20.29%) number of N's = 2,508 bp (0%) GC percentage = 40.84% >>>>>>> Mismatches and indels general error rate = 0.0028 number of mismatches = 1,176,792 number of insertions = 46,822 mapped reads with insertion percentage = 1.03% number of deletions = 50,675 mapped reads with deletion percentage = 1.11% homopolymer indels = 46.19% >>>>>>> Coverage mean coverageData = 0.1438X std coverageData = 0.5055X There is a 11.43% of reference with a coverageData >= 1X There is a 2.26% of reference with a coverageData >= 2X There is a 0.48% of reference with a coverageData >= 3X There is a 0.11% of reference with a coverageData >= 4X There is a 0.03% of reference with a coverageData >= 5X There is a 0.01% of reference with a coverageData >= 6X There is a 0% of reference with a coverageData >= 7X There is a 0% of reference with a coverageData >= 8X There is a 0% of reference with a coverageData >= 9X There is a 0% of reference with a coverageData >= 10X There is a 0% of reference with a coverageData >= 11X There is a 0% of reference with a coverageData >= 12X There is a 0% of reference with a coverageData >= 13X There is a 0% of reference with a coverageData >= 14X There is a 0% of reference with a coverageData >= 15X There is a 0% of reference with a coverageData >= 16X There is a 0% of reference with a coverageData >= 17X There is a 0% of reference with a coverageData >= 18X There is a 0% of reference with a coverageData >= 19X There is a 0% of reference with a coverageData >= 20X There is a 0% of reference with a coverageData >= 21X There is a 0% of reference with a coverageData >= 22X There is a 0% of reference with a coverageData >= 23X There is a 0% of reference with a coverageData >= 24X There is a 0% of reference with a coverageData >= 25X There is a 0% of reference with a coverageData >= 26X There is a 0% of reference with a coverageData >= 27X There is a 0% of reference with a coverageData >= 28X There is a 0% of reference with a coverageData >= 29X There is a 0% of reference with a coverageData >= 30X There is a 0% of reference with a coverageData >= 31X There is a 0% of reference with a coverageData >= 32X There is a 0% of reference with a coverageData >= 33X There is a 0% of reference with a coverageData >= 34X There is a 0% of reference with a coverageData >= 35X There is a 0% of reference with a coverageData >= 36X There is a 0% of reference with a coverageData >= 37X There is a 0% of reference with a coverageData >= 38X There is a 0% of reference with a coverageData >= 39X There is a 0% of reference with a coverageData >= 40X There is a 0% of reference with a coverageData >= 41X There is a 0% of reference with a coverageData >= 42X There is a 0% of reference with a coverageData >= 43X There is a 0% of reference with a coverageData >= 44X There is a 0% of reference with a coverageData >= 45X There is a 0% of reference with a coverageData >= 46X There is a 0% of reference with a coverageData >= 47X There is a 0% of reference with a coverageData >= 48X There is a 0% of reference with a coverageData >= 49X There is a 0% of reference with a coverageData >= 50X There is a 0% of reference with a coverageData >= 51X >>>>>>> Coverage per contig chr1 249250621 51034393 0.20475131734977703 0.8510692417593008 chr2 243199373 34705196 0.1427026540894906 0.4421401558866486 chr3 198022430 31298775 0.1580567161002923 0.461448505681979 chr4 191154276 21875677 0.11443990402809509 0.391164003205383 chr5 180915260 38248346 0.21141580870513632 0.5418650889553129 chr6 171115067 25533153 0.14921627561879164 0.488562726206265 chr7 159138663 25600629 0.1608699515088926 0.47076960517816874 chr8 146364022 23034068 0.15737520522632262 0.4641237264017406 chr9 141213431 19854363 0.14059826221487387 0.4449219388622084 chr10 135534747 21195645 0.15638532161793167 0.5355198401472298 chr11 135006516 20549920 0.15221428275358206 0.47080335956417674 chr12 133851895 20477177 0.15298384083393066 0.45691075531236996 chr13 115169878 14103764 0.12246052739588732 0.40734375213181756 chr14 107349540 9560585 0.08906032573590907 0.3462701003304473 chr15 102531392 10955637 0.10685153869753372 0.38308117630174876 chr16 90354753 11048054 0.122274187391116 0.41124705529206146 chr17 81195210 11319450 0.1394103174312869 0.47131077458225695 chr18 78077248 9059199 0.11602866689153798 0.4509395242287363 chr19 59128983 6372469 0.10777234237226777 0.5937366481687265 chr20 63025520 7835962 0.12432998569468368 0.4130917303303912 chr21 48129895 5775762 0.12000362768296087 0.41349725256057124 chr22 51304566 4420638 0.08616461154744004 0.34656229799469 chrMT 16571 625132 37.724458391165285 19.83343703017679 chrX 155270560 20039125 0.12905939799534438 0.4217589754235423 chrY 59373566 507236 0.00854312843530402 0.1880914338350432